Origin IGS: acgatcctgcgaaaccatccatttgcagatcctttcttcgccgaatccggtggcgtggctatacccaaaaagtaaggcaattttccaccgacctcagtcctctgtgctcaagccgtttggtttagatggccaagccctctgacaaaactctctaccacctccgatacaaaatcagcgagagggggcatac .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gtatgccccctctcgctgattttgtatcggaggtggtagagagttttgtcagagggcttggccatctaaaccaaacggcttgagcacagaggactgaggtcggtggaaaattgccttactttttgggtatagccacgccaccggattcggcgaagaaaggatctgcaaatggatggtttcgcaggatcgt Mask Tandem Repeat Region ================================================ acgatcctgcgaaaccatccatttgcagatcctttcttcgccgaatccggtggcgtggctatacccaaaaagtaaggcaattttccaccgacctcagtcctctgtgctcaagccgtttggtttagatggccaagccctctgacaaaactctctaccacctccgatacaaaatcagcgagagggggcatac Find is-nt database================================================ Query_seq: PG1721:PG1722|PG1721:PG1722:ribonuclease R:hypothetical protein:-><-:1812533..1812722 190 acgatcctgcgaaaccatccatttgcagatcctttcttcgccgaatccggtggcgtggctatacccaaaaagtaaggcaattttccaccgacctcagtcctctgtgctcaagccgtttggtttagatggccaagccctctgacaaaactctctaccacctccgatacaaaatcagcgagagggggcatac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1721:PG1722|PG1721:PG1722:ribonuclease R:hypothetical protein:-><-:1812533..1812722 190 acgatcctgcgaaaccatccatttgcagatcctttcttcgccgaatccggtggcgtggctatacccaaaaagtaaggcaattttccaccgacctcagtcctctgtgctcaagccgtttggtttagatggccaagccctctgacaaaactctctaccacctccgatacaaaatcagcgagagggggcatac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1721:PG1722|PG1721:PG1722:ribonuclease R:hypothetical protein:-><-:1812533..1812722 190 acgatcctgcgaaaccatccatttgcagatcctttcttcgccgaatccggtggcgtggctatacccaaaaagtaaggcaattttccaccgacctcagtcctctgtgctcaagccgtttggtttagatggccaagccctctgacaaaactctctaccacctccgatacaaaatcagcgagagggggcatac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acgatcctgcgaaaccatccatttgcagatcctttcttcgccgaatccggtggcgtggctatacccaaaaagtaaggcaattttccaccgacctcagtcctctgtgctcaagccgtttggtttagatggccaagccctctgacaaaactctctaccacctccgatacaaaatcagcgagagggggcatac Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 21 End: 122 .................... M C R S F L R R I R W R G Y T Q K V R Q F S T D L S P L C S S R L V .................................................................... Protein_Len: 41 Strand: + Start: 17 End: 139 ................ M H L Q I L S S P N P V A W L Y P K S K A I F H R P Q S S V L K P F G L D G Q A L ................................................... acgatcctgcgaaaccatccatttgcagatcctttcttcgccgaatccggtggcgtggctatacccaaaaagtaaggcaattttccaccgacctcagtcctctgtgctcaagccgtttggtttagatggccaagccctctgacaaaactctctaccacctccgatacaaaatcagcgagagggggcatac Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ acgatcctgcgaaaccatccatttgcagatcctttcttcgccgaatccggtggcgtggctatacccaaaaagtaaggcaattttccaccgacctcagtcctctgtgctcaagccgtttggtttagatggccaagccctctgacaaaactctctaccacctccgatacaaaatcagcgagagggggcatac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1721:PG1722|PG1721:PG1722:ribonuclease R:hypothetical protein:-><-:1812533..1812722 190 acgatcctgcgaaaccatccatttgcagatcctttcttcgccgaatccggtggcgtggctatacccaaaaagtaaggcaattttccaccgacctcagtcctctgtgctcaagccgtttggtttagatggccaagccctctgacaaaactctctaccacctccgatacaaaatcagcgagagggggcatac Intra-Species Hit: Count: 1 Min: 1 Max: 190 Len: 190 Subject: NC_002950_PG1721_PG1722|ribonuclease R:hypothetical protein|POSITIVE:NEGATIVE|[1812533,1812722]|190 HSP 1 e-value: 1.0E-104 bit: 377.0 Len: 190 Query Start:1 Query End:190 Subject Strand: POSITIVE Subject Start: 1 Subject End: 190 acgatcctgcgaaaccatccatttgcagatcctttcttcgccgaatccggtggcgtggctatacccaaaaagtaaggcaattttccaccgacctcagtcctctgtgctcaagccgtttggtttagatggccaagccctctgacaaaactctctaccacctccgatacaaaatcagcgagagggggcatac acgatcctgcgaaaccatccatttgcagatcctttcttcgccgaatccggtggcgtggctatacccaaaaagtaaggcaattttccaccgacctcagtcctctgtgctcaagccgtttggtttagatggccaagccctctgacaaaactctctaccacctccgatacaaaatcagcgagagggggcatac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGAUCCUGCGAAACCAUCCAUUUGCAGAUCCUUUCUUCGCCGAAUCCGGUGGCGUGGCUAUACCCAAAAAGUAAGGCAAUUUUCCACCGACCUCAGUCCUCUGUGCUCAAGCCGUUUGGUUUAGAUGGCCAAGCCCUCUGACAAAACUCUCUACCACCUCCGAUACAAAAUCAGCGAGAGGGGGCAUAC ..((((.((((((........))))))))))........(((.....((((((....(((.(((.......))).)))......))))))........(((((.(((.......((((...(((((.(((...))).)))))..))))..............(((.....))).)))))))).))).... (-49.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAUGCCCCCUCUCGCUGAUUUUGUAUCGGAGGUGGUAGAGAGUUUUGUCAGAGGGCUUGGCCAUCUAAACCAAACGGCUUGAGCACAGAGGACUGAGGUCGGUGGAAAAUUGCCUUACUUUUUGGGUAUAGCCACGCCACCGGAUUCGGCGAAGAAAGGAUCUGCAAAUGGAUGGUUUCGCAGGAUCGU ...(((.((((((.((.((((((.(((((....))))).))))))..)).))))))...(((((((((........(((..((.(.(((....))).).)).((((.....(((((........)))))...)))))))..(((((((..........)))))))....)))))))))..)))....... (-57.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 404 65 26 47 5 NC_002950:PG1269|5end_delta-1-pyrroline-5-carboxylate_dehydrogenase_1349201..1349431_NEGATIVE 400 139 95 103 58 NC_002950:PG0607|5end_hypothetical_protein_662552..662782_POSITIVE 388 130 85 169 110 NC_002950:PG0657|5end_Maf-like_protein_707782..708012_NEGATIVE 386 78 31 63 1 NC_002950:PG1945|5end_hypothetical_protein_2031697..2031927_POSITIVE 385 45 3 199 166 NC_002950:PG0171|5end_5'-nucleotidase_family_protein_191724..191954_POSITIVE 375 60 15 47 1 NC_002950:PG1610|5end_hypothetical_protein_1690549..1690779_NEGATIVE 375 136 92 193 138 NC_002950:PG0986|5end_hypothetical_protein_1047426..1047656_POSITIVE 360 67 25 205 153 NC_002950:PG1247|5end_3-dehydroquinate_synthase_1324444..1324674_POSITIVE 353 67 22 175 127 NC_002950:PG0339|5end_hypothetical_protein_375062..375292_POSITIVE 352 120 85 50 1 NC_002950:PG2091|5end_dihydroneopterin_aldolase_2191177..2191407_POSITIVE 350 60 18 199 161 NC_002950:PG2154|5end_hypothetical_protein_2260945..2261175_NEGATIVE 342 57 12 123 76 NC_002950:PG1388|5end_hypothetical_protein_1470889..1471119_NEGATIVE 340 114 76 228 199 NC_002950:PG1366|5end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_1447380..1447610_NEGATIVE 340 56 15 190 143 NC_002950:PG0450|5end_hypothetical_protein_490812..491042_POSITIVE 339 180 134 225 178 NC_002950:PG2055|5end_dihydroorotate_dehydrogenase_2153060..2153290_NEGATIVE 336 50 2 126 74 NC_002950:PG0268|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_300898..301128_POSITIVE 334 59 15 213 161 NC_002950:PG2109|5end_thiamine-phosphate_pyrophosphorylase_2219452..2219682_NEGATIVE 333 63 25 68 36 NC_002950:PG1289|5end_GDP-fucose_synthetase_1367041..1367271_POSITIVE 332 70 39 99 63 NC_002950:PG2090|5end_cation_efflux_family_protein_2190230..2190460_POSITIVE 332 59 18 224 181 NC_002950:PG1999|5end_hypothetical_protein_2088821..2089051_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 433 60 15 147 101 NC_002950:PG0555|3end_DNA-binding_protein,_histone-like_family_611716..611866_NEGATIVE 395 60 14 144 97 NC_002950:PG0542|3end_hypothetical_protein_595377..595527_NEGATIVE 381 130 86 105 46 NC_002950:PG1112|3end_hypothetical_protein_1185571..1185721_POSITIVE 375 60 15 50 4 NC_002950:PG1611|3end_hypothetical_protein_1690546..1690696_NEGATIVE 370 130 85 132 94 NC_002950:PG0658|3end_phosphatase,_YrbI_family_707798..707948_NEGATIVE 352 136 95 147 99 NC_002950:PG1285|3end_glucosamine-6-phosphate_deaminase_1364941..1365091_POSITIVE 342 57 12 142 95 NC_002950:PG1389|3end_DNA-binding_protein,_histone-like_family_1470870..1471020_NEGATIVE 340 66 24 97 50 NC_002950:PG0349|3end_hydrolase,_haloacid_dehalogenase-like_family_385291..385441_POSITIVE 336 50 2 121 69 NC_002950:PG0267|3end_arginyl-tRNA_synthetase_300973..301123_POSITIVE 333 63 25 75 43 NC_002950:PG1288|3end_GDP-mannose_4,6-dehydratase_1367128..1367278_POSITIVE 332 136 98 71 31 NC_002950:PG2112|3end_hypothetical_protein_2222663..2222813_POSITIVE 330 139 92 60 20 NC_002950:PG2224|3end_hypothetical_protein_2339500..2339650_POSITIVE 330 137 92 150 78 NC_002950:PG1370|3end_lysyl-tRNA_synthetase_1450493..1450643_NEGATIVE 329 59 27 72 27 NC_002950:PG1622|3end_DNA_topoisomerase_IV_subunit_A_1701418..1701568_NEGATIVE 327 66 25 136 99 NC_002950:PG2086|3end_hypothetical_protein_2187070..2187220_POSITIVE 325 123 87 73 36 NC_002950:PG0881|3end_recombinase_A_944165..944315_POSITIVE 323 138 99 41 1 NC_002950:PG1739|3end_hypothetical_protein_1825128..1825278_NEGATIVE 321 63 32 95 60 NC_002950:PG1733|3end_hypothetical_protein_1821186..1821336_NEGATIVE 319 89 41 109 59 NC_002950:PG1801|3end_v-type_ATPase,_subunit_E,_putative_1895616..1895766_POSITIVE 318 58 15 72 25 NC_002950:PG0605|3end_hypothetical_protein_661165..661315_NEGATIVE